nipy 0.4.1

A python package for analysis of neuroimaging data

Neuroimaging tools for Python.

The aim of NIPY is to produce a platform-independent Python environment for the analysis of functional brain imaging data using an open development model.

In NIPY we aim to:

1. Provide an open source, mixed language scientific programming environment suitable for rapid development.

2. Create software components in this environment to make it easy to develop tools for MRI, EEG, PET and other modalities.

3. Create and maintain a wide base of developers to contribute to this platform.

4. To maintain and develop this framework as a single, easily installable bundle.

NIPY is the work of many people. We list the main authors in the file AUTHOR in the NIPY distribution, and other contributions in THANKS.

Website

Current information can always be found at the NIPY project website.

Mailing Lists

For questions on how to use nipy or on making code contributions, please see the neuroimaging mailing list:

https://mail.python.org/mailman/listinfo/neuroimaging

Please report bugs at github issues:

https://github.com/nipy/nipy/issues

You can see the list of current proposed changes at:

https://github.com/nipy/nipy/pulls

Code

You can find our sources and single-click downloads:

• Main repository on Github;

• Documentation for all releases and current development tree;

• Download the current development version as a tar/zip file;

• Downloads of all available releases.

Tests

To run nipy’s tests, you will need to install the nose Python testing package. If you are using Python 2.7, you will also need to install the mock testing package - e.g.:

pip install nose mock

Then:

python -c "import nipy; nipy.test()"

You can also run nipy’s tests with the nipnost script in the tools directory of the nipy distribution:

./tools/nipnost nipy

nipnost is a thin wrapper around the standard nosetests program that is part of the nose package. Try nipnost --help to see a large number of command-line options.

Dependencies

To run NIPY, you will need:

• python >= 2.6 (tested with 2.6, 2.7, 3.2 through 3.5)

• numpy >= 1.6.0

• scipy >= 0.9.0

• sympy >= 0.7.0

• nibabel >= 1.2

You will probably also like to have:

• ipython for interactive work

• matplotlib for 2D plotting

• mayavi for 3D plotting

License

We use the 3-clause BSD license; the full license is in the file LICENSE in the nipy distribution.